Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI38085
Trapped Gene
Gabra3 (ENSMUSG00000031343)
Vector Insertion
Chr X: 69798015 - 69901494
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000382095 (ChrX:69901346..69901493 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCAGGCTCTATCAGGGCTTA ChrX:69901397..69901416 59.43 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000382095 (ChrX:69901346..69901493 -)
Downstram Exon
ENSMUSE00000699760 (ChrX:69798016..69798198 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCAGGCTCTATCAGGGCTTA ChrX:69901397..69901416 59.43 55 TTGATTCCCCTTGGCTAGTG ChrX:69798037..69798056 60.07 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000699761 ChrX:69901994..69902073 AGCTCACACTTTGGTCCTGAA ChrX:69902023..69902043 59.9 47.62
upstream ENSMUSE00000382095 ChrX:69901346..69901493 CCAGGCTCTATCAGGGCTTA ChrX:69901397..69901416 59.43 55
upstream ENSMUSE00000341236 ChrX:69798016..69798190 GGGGAATCAAGACGACAAGA ChrX:69798049..69798068 60.05 50
upstream ENSMUSE00000699760 ChrX:69798016..69798198 GGGGAATCAAGACGACAAGA ChrX:69798049..69798068 60.05 50

*** Putative Vector Insertion (Chr X: 69798015 - 69901494) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000517626 ChrX:69785402..69785523 CAAAAGCCGATCCAAGATTC ChrX:69785417..69785436 59.65 45
downstream ENSMUSE00000516614 ChrX:69756644..69756711 GTCTGACACAGGGCCAAAAC ChrX:69756631..69756650 60.56 55
downstream ENSMUSE00000552669 ChrX:69746418..69746638 CAGTCTGAGCAGCTTGTTGG ChrX:69746428..69746447 59.77 55
downstream ENSMUSE00000552667 ChrX:69721565..69721647 GGGCATTCAGCGTGTATTGT ChrX:69721602..69721621 60.92 50
downstream ENSMUSE00000208494 ChrX:69704928..69705071 TGGCCAAGCAAGTCATACTG ChrX:69704941..69704960 59.86 50
downstream ENSMUSE00000552665 ChrX:69696843..69696995 TGGCAAGTAGGTCTGGATGA ChrX:69696897..69696916 59.24 50
downstream ENSMUSE00000208496 ChrX:69690514..69690725 GTCGCGTATGCCACTTTAGG ChrX:69690628..69690647 60.66 55
downstream ENSMUSE00000520023 ChrX:69678020..69680323 TCCTTGGCCAGATTGATAGG ChrX:69680219..69680238 60.03 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGGTGTGTTTGTTCCCCTCT ChrX:69880507..69880527 60.4 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGGTGTGTTTGTTCCCCTCT ChrX:69880507..69880527 60.4 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031343